Additional files Additional file 1: Tables S1-2.pdf. Table S1. lists the initial concentrations of molecules. Table S2. lists the kinetic reactions, ordinary differential equations, and parameters used in the models. Additional file 2: Canonical model.xml. The canonical model file is provided as an .xml file and can be viewed using CellDesigner. Additional file 3: GDI-integrated model.xml. The GDI-integrated model file is provided as an .xml file and can be viewed using CellDesigner. Competing interests The authors declare that they have no competing interests. Authors’ contributions TO conceived of the project. TO, MM, MO, and MT carried out the studies. TO drafted the manuscript. All authors read and approved the final manuscript. This study was supported in part by a Grant-in-Aid for Scientific Research from the Japan Society for the Promotion of Science (16590642 and 20591596 to TO and 13671354, 16591368, 18590706, and 20591596 to MM) and Grant for Assist KAKEN from Kanazawa Medical University (K2014-9).